Quartet Puzzling: A Quartet Maximum-Likelihood Method for Reconstructing Tree Topologies
نویسندگان
چکیده
منابع مشابه
Quartet Puzzling: A Quartet Maximum-Likelihood Method for Reconstructing Tree Topologies
A versatile method, quartet puzzling, is introduced to reconstruct the topology (branching pattern) of a phylogenetic tree based on DNA or amino acid sequence data. This method applies maximum-likelihood tree reconstruction to all possible quartets that can be formed from n sequences. The quartet trees serve as starting points to reconstruct a set of optimal n-taxon trees. The majority rule con...
متن کاملA Global Maximum Likelihood Super-Quartet Phylogeny Method
Extending the idea of our previous algorithm [17, 18] we developed a new sequential quartet-based phylogenetic tree construction method. This new algorithm reconstructs the phylogenetic tree iteratively by examining at each merge step every possible super-quartet which is formed by four subtrees instead of simple quartet in our previous algorithm. Because our new algorithm evaluates super-quart...
متن کاملShort Quartet Puzzling: A New Quartet-Based Phylogeny Reconstruction Algorithm
Quartet-based phylogeny reconstruction methods, such as Quartet Puzzling, were introduced in the hope that they might be competitive with maximum likelihood methods, without being as computationally intensive. However, despite the numerous quartet-based methods that have been developed, their performance in simulation has been disappointing. In particular, Ranwez and Gascuel, the developers of ...
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Among the distance based algorithms in phylogenetic tree reconstruction, the neighbor-joining algorithm has been a widely used and effective method. We propose a new algorithm which counts the number of consistent quartets for cherry picking with tie breaking. We show that the success rate of the new algorithm is almost equal to that of neighbor-joining. This gives an explanation of the qualita...
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Phylogenetic networks can model reticulate evolutionary events such as hybridization, recombination, and horizontal gene transfer. However, reconstructing such networks is not trivial. Popular character-based methods are computationally inefficient, whereas distance-based methods cannot guarantee reconstruction accuracy because pairwise genetic distances only reflect partial information about a...
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ژورنال
عنوان ژورنال: Molecular Biology and Evolution
سال: 1996
ISSN: 0737-4038,1537-1719
DOI: 10.1093/oxfordjournals.molbev.a025664